HsaEX6046248 @ hg19
Exon Skipping
Gene
ENSG00000204525 | HLA-C
Description
major histocompatibility complex, class I, C [Source:HGNC Symbol;Acc:4933]
Coordinates
chr6:31236526-31237302:-
Coord C1 exon
chr6:31237270-31237302
Coord A exon
chr6:31237115-31237162
Coord C2 exon
chr6:31236526-31236950
Length
48 bp
Sequences
Splice sites
3' ss Seq
TTTTTTTTGTTCTACCCCAGGCA
3' ss Score
9.95
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
GTGGAAAAGGAGGGAGCTGCTCTCAGGCTGCGT
Seq A exon
GCAGCAACAGTGCCCAGGGCTCTGATGAGTCTCTCATCACTTGTAAAG
Seq C2 exon
CCTGAGACAGCTGCCTGTGTGGGACTGAGATGCAGGATTTCTTCACACCTCTCCTTTGTGACTTCAAGAGCCTCTGGCATCTCTTTCTGCAAAGGCACCTGAATGTGTCTGCGTTCCTGTTAGCATAATGTGAGGAGGTGGAGAGACAGCCCACCCCCGTGTCCACCGTGACCCCTGTCCCCACACTGACCTGTGTTCCCTCCCCGATCATCTTTCCTGTTCCAGAGAGGTGGGGCTGGATGTCTCCATCTCTGTCTCAAATTCATGGTGCACTGAGCTGCAACTTCTTACTTCCCTAATGAAGTTAAGAACCTGAATATAAATTTGTGTTCTCAAATATTTGCTATGAAGCGTTGATGGATTAATTAAATAAGTCAATTCCTAGAAGTTGAGAGAGCAAATAAAGACCTGAGAACCTTCCAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204525-'12-12,'12-11,13-12=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF126692=P12=FE(27.4=100),PF066236=MHC_I_C=PU(44.8=72.2)
A:
PF126692=P12=PD(25.0=82.4),PF066236=MHC_I_C=PD(51.7=88.2)
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAGGAGGGAGCTGCTCTCA
R:
GGAACGCAGACACATTCAGGT
Band lengths:
146-194
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)